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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ), 'gf_id' => 'HOM05D001088', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001088' ), 'data_identifier' => 'HOM05D001088', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001088', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08640' => 'bna', 'A02p08960' => 'bna', 'A03p13260' => 'bna', 'A06p45030' => 'bna', 'A07p00960' => 'bna', 'A09p12520' => 'bna', 'A09p23040' => 'bna', 'A09p23050' => 'bna', 'A09p59160' => 'bna', 'A10p14030' => 'bna', 'Aa31csc22G140' => 'aar', 'Aa31LG2G12730' => 'aar', 'Aa31LG2G12740' => 'aar', 'Aa31LG3G12510' => 'aar', 'Aa31LG8G16730' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2765' => 'aag', 'Actinidia01889' => 'ach', 'Actinidia02136' => 'ach', 'Actinidia02137' => 'ach', 'Actinidia05207' => 'ach', 'Actinidia07460' => 'ach', 'Actinidia12182' => 'ach', 'Actinidia12859' => 'ach', 'Actinidia14424' => 'ach', 'Actinidia14425' => 'ach', 'Actinidia14426' => 'ach', 'Actinidia22765' => 'ach', 'Actinidia22821' => 'ach', 'Actinidia27466' => 'ach', 'Actinidia27467' => 'ach', 'Actinidia27468' => 'ach', 'Ah.05g173780' => 'amhyb', 'Ah.12g056800' => 'amhyb', 'AL3G48490' => 'aly', 'AL7G23010' => 'aly', 'AL8G10490' => 'aly', 'AL8G10500' => 'aly', 'AL8G10540' => 'aly', 'AL8G32480' => 'aly', 'Aqoxy2G01147' => 'aox', 'Aqoxy7G01341' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4XM3SI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7NAI3S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9WTJ6Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8KV7F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DW6JLP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UX3HZQ' => 'arhy', 'AT2G19750' => 'ath', 'AT4G29390' => 'ath', 'AT5G47480' => 'ath', 'AT5G47490' => 'ath', 'AT5G56670' => 'ath', 'ATR0580G456' => 'atr', 'ATR0602G181' => 'atr', 'ATR0737G033' => 'atr', 'ATR0789G100' => 'atr', 'ATR0824G146' => 'atr', 'Atru.chr1.3611' => 'acertr', 'Atru.chr7.1516' => 'acertr', 'Atru.chr9.1309' => 'acertr', 'AUR62001075' => 'cqu', 'AUR62004160' => 'cqu', 'AUR62007519' => 'cqu', 'AUR62013687' => 'cqu', 'AUR62042797' => 'cqu', 'AUR62043758' => 'cqu', 'AUR62043807' => 'cqu', 'AUR62044032' => 'cqu', 'BcaB01g04413' => 'bca', 'BcaB03g16762' => 'bca', 'BcaB05g22290' => 'bca', 'BcaB07g30775' => 'bca', 'BcaB07g30778' => 'bca', 'BcaB08g34881' => 'bca', 'BcaB08g36070' => 'bca', 'BcaC01g06437' => 'bca', 'BcaC01g06440' => 'bca', 'BcaC03g14207' => 'bca', 'BcaC04g20062' => 'bca', 'BcaC04g21622' => 'bca', 'BcaC04g21624' => 'bca', 'BcaC06g34248' => 'bca', 'BcaC06g36617' => 'bca', 'BcaC07g41239' => 'bca', 'BcaC09g51724' => 'bca', 'BolC1t00969H' => 'bol', 'BolC2t07622H' => 'bol', 'BolC7t40617H' => 'bol', 'BolC7t43655H' => 'bol', 'BolC8t51806H' => 'bol', 'BolC9t54385H' => 'bol', 'BolC9t55842H' => 'bol', 'BolC9t55843H' => 'bol', 'BolC9t57676H' => 'bol', 'BraA01t00814Z' => 'bra', 'BraA03t10638Z' => 'bra', 'BraA06t27374Z' => 'bra', 'BraA07t27895Z' => 'bra', 'BraA09t36898Z' => 'bra', 'BraA09t37909Z' => 'bra', 'BraA09t41300Z' => 'bra', 'BraA10t43494Z' => 'bra', 'C01p10110' => 'bna', 'C02p15060' => 'bna', 'C03p15530' => 'bna', 'C07p02120' => 'bna', 'C07p31140' => 'bna', 'C08p42450' => 'bna', 'C09p14850' => 'bna', 'C09p29760' => 'bna', 'C09p29790' => 'bna', 'C09p48260' => 'bna', 'CAN.G1227.16' => 'can', 'CAN.G1227.19' => 'can', 'CAN.G726.3' => 'can', 'CANSAT21G1578' => 'cansat', 'CANSAT54G0002' => 'cansat', 'CANSAT56G1123' => 'cansat', 'CARHR111790' => 'chi', 'CARHR173860' => 'chi', 'CARHR173870' => 'chi', 'CARHR173880' => 'chi', 'CARHR237200' => 'chi', 'CARHR270360' => 'chi', 'Carub.0003s3403' => 'cru', 'Carub.0007s1116' => 'cru', 'Carub.0008s0028' => 'cru', 'Carub.0008s0029' => 'cru', 'Carub.0008s1714' => 'cru', 'Ca_21968_v3' => 'car', 'Ca_24578_v3' => 'car', 'Ca_24579_v3' => 'car', 'CBR_g21774' => 'cbr', 'Cc05_g06650' => 'ccan', 'Cc08_g12380' => 'ccan', 'CDE02G2709' => 'cde', 'CDE11G0522' => 'cde', 'Cfa011147' => 'cfa', 'Cfa012721' => 'cfa', 'Cfa023413' => 'cfa', 'Ciclev10009868m.g' => 'ccl', 'Ciclev10018486m.g' => 'ccl', 'Ciclev10026891m.g' => 'ccl', 'CiPaw.02G142900' => 'cil', 'CiPaw.02G143000' => 'cil', 'CiPaw.04G153300' => 'cil', 'CiPaw.04G153400' => 'cil', 'CiPaw.11G079400' => 'cil', 'CiPaw.12G052700' => 'cil', 'CiPaw.13G032000' => 'cil', 'ClCG03G015940' => 'cla', 'ClCG10G002670' => 'cla', 'ClCG11G001900' => 'cla', 'COL.COLO4_18256' => 'col', 'COL.COLO4_29545' => 'col', 'COL.COLO4_30572' => 'col', 'COL.COLO4_37171' => 'col', 'Cpa.g.sc29.161' => 'cpa', 'Cpa.g.sc29.162' => 'cpa', 'Cpa.g.sc53.31' => 'cpa', 'Cpa.g.sc78.57' => 'cpa', 'Cre01.g008850' => 'cre', 'Cre16.g666301' => 'cre', 'CsaV3_1G040010' => 'csa', 'CsaV3_2G001630' => 'csa', 'CsaV3_3G002700' => 'csa', 'CSS0009387' => 'camsi', 'CSS0009765' => 'camsi', 'CSS0014428' => 'camsi', 'CSS0015192' => 'camsi', 'CSS0017087' => 'camsi', 'CSS0017689' => 'camsi', 'CSS0025150' => 'camsi', 'CSS0029700' => 'camsi', 'CSS0035053' => 'camsi', 'CSS0036374' => 'camsi', 'CSS0047964' => 'camsi', 'CSS0048888' => 'camsi', 'DCAR_004953' => 'dca', 'DCAR_006832' => 'dca', 'DCAR_007602' => 'dca', 'DCAR_025100' => 'dca', 'DCAR_027773' => 'dca', 'Dinv21640' => 'din', 'Dinv39149' => 'din', 'Dinv43666' => 'din', 'Duzib068G0990' => 'dzi', 'Duzib084G0052' => 'dzi', 'Duzib138G0400' => 'dzi', 'Duzib150G0175' => 'dzi', 'Duzib168G2234' => 'dzi', 'Duzib187G0161' => 'dzi', 'Duzib192G0599' => 'dzi', 'Duzib205G0847' => 'dzi', 'Duzib235G0851' => 'dzi', 'Duzib235G0879' => 'dzi', 'ECA233G2248' => 'eca', 'ECA240G0308' => 'eca', 'ECA248G3293' => 'eca', 'EL10Ac1g00834' => 'bvu', 'EL10Ac2g02745' => 'bvu', 'EL10Ac3g07412' => 'bvu', 'EL10Ac5g13068' => 'bvu', 'Eucgr.D02081' => 'egr', 'FAN01G0267' => 'fan', 'FAN02G3601' => 'fan', 'FAN03G0625' => 'fan', 'FAN04G2185' => 'fan', 'FAN05G4928' => 'fan', 'FAN06G0264' => 'fan', 'FAN06G4914' => 'fan', 'FAN08G0735' => 'fan', 'FAN09G2172' => 'fan', 'FAN10G1865' => 'fan', 'FAN10G2901' => 'fan', 'FAN13G2501' => 'fan', 'FAN14G3508' => 'fan', 'FAN18G0873' => 'fan', 'FAN18G1240' => 'fan', 'FAN19G2214' => 'fan', 'FAN23G2630' => 'fan', 'FAN26G3379' => 'fan', 'FAN28G1693' => 'fan', 'FvH4_1g10750' => 'fve', 'FvH4_5g19020' => 'fve', 'FvH4_7g11010' => 'fve', 'Glyma.01G209200' => 'gma', 'Glyma.01G209300' => 'gma', 'Glyma.01G209400' => 'gma', 'Glyma.05G059600' => 'gma', 'Glyma.11G032800' => 'gma', 'Glyma.11G032900' => 'gma', 'Glyma.11G033000' => 'gma', 'Glyma.17G142060' => 'gma', 'Gohir.A03G007900' => 'ghi', 'Gohir.A05G027700' => 'ghi', 'Gohir.A07G147100' => 'ghi', 'Gohir.A08G170400' => 'ghi', 'Gohir.A10G063500' => 'ghi', 'Gohir.A13G194200' => 'ghi', 'Gohir.D03G163100' => 'ghi', 'Gohir.D05G029500' => 'ghi', 'Gohir.D07G153100' => 'ghi', 'Gohir.D08G188600' => 'ghi', 'Gohir.D10G065100' => 'ghi', 'Gohir.D13G200000' => 'ghi', 'Gorai.001G175200' => 'gra', 'Gorai.001G175300' => 'gra', 'Gorai.003G171700' => 'gra', 'Gorai.004G198600' => 'gra', 'Gorai.009G029700' => 'gra', 'Gorai.011G069000' => 'gra', 'Gorai.013G228800' => 'gra', 'GSVIVG01004707001' => 'vvi', 'GSVIVG01016902001' => 'vvi', 'GSVIVG01018158001' => 'vvi', 'HanXRQChr01g0002161' => 'han', 'HanXRQChr06g0172161' => 'han', 'HanXRQChr07g0186911' => 'han', 'HanXRQChr08g0227681' => 'han', 'HanXRQChr10g0319051' => 'han', 'HanXRQChr13g0417441' => 'han', 'HanXRQChr16g0511621' => 'han', 'HanXRQChr16g0511631' => 'han', 'Haze_02713' => 'cav', 'Haze_07907' => 'cav', 'Hma1.2p1_0234F.1_g098400' => 'hma', 'Hma1.2p1_0316F.1_g123140' => 'hma', 'Hma1.2p1_0679F.1_g202210' => 'hma', 'Hma1.2p1_0825F.1_g224790' => 'hma', 'Hma1.2p1_0835F.1_g225840' => 'hma', 'Hma1.2p1_1074F.1_g254430' => 'hma', 'Hma1.2p1_1172F.1_g263640' => 'hma', 'Hma1.2p1_1657F.1_g296040' => 'hma', 'HPP92_001664' => 'vpl', 'HPP92_005331' => 'vpl', 'HPP92_005334' => 'vpl', 'HPP92_005368' => 'vpl', 'HPP92_005369' => 'vpl', 'HPP92_024980' => 'vpl', 'Hund00735' => 'sun', 'Hund07656' => 'sun', 'Hund13401' => 'sun', 'Hund14541' => 'sun', 'Hund17049' => 'sun', 'Hund27380' => 'sun', 'Lalb_Chr05g0214461' => 'lal', 'Lalb_Chr05g0214471' => 'lal', 'Lalb_Chr05g0221251' => 'lal', 'Lalb_Chr09g0324381' => 'lal', 'Lalb_Chr09g0324391' => 'lal', 'Lalb_Chr09g0330091' => 'lal', 'Lalb_Chr16g0379571' => 'lal', 'Lalb_Chr16g0386691' => 'lal', 'Lj2A218T55' => 'lonja', 'Lj2g0011161' => 'lja', 'Lj2g0019854' => 'lja', 'Lj2g0023076' => 'lja', 'Lj4g0020557' => 'lja', 'Lj4g0027122' => 'lja', 'Lj7A537G48' => 'lonja', 'Lj8A263G42' => 'lonja', 'Lsat_1_v5_gn_3_100' => 'lsa', 'Lsat_1_v5_gn_4_56481' => 'lsa', 'Lsat_1_v5_gn_5_146160' => 'lsa', 'Lsat_1_v5_gn_5_45420' => 'lsa', 'Lsat_1_v5_gn_6_90960' => 'lsa', 'Lsat_1_v5_gn_7_38741' => 'lsa', 'Lsat_1_v5_gn_8_155260' => 'lsa', 'Lsat_1_v5_gn_8_87340' => 'lsa', 'Manes.01G080900' => 'mes', 'Manes.02G039800' => 'mes', 'Manes.03G030100' => 'mes', 'Manes.16G105700' => 'mes', 'Mapoly0001s0292' => 'mpo', 'Mapoly0063s0011' => 'mpo', 'Mapoly0069s0078' => 'mpo', 'MBI01_g16588_MAGBIO' => 'mbi', 'MBI04_g09503_MAGBIO' => 'mbi', 'MBI04_g12183_MAGBIO' => 'mbi', 'MBI04_g46436_MAGBIO' => 'mbi', 'MBI14_g41873_MAGBIO' => 'mbi', 'MCO02G268' => 'mco', 'MD00G1171200' => 'mdo', 'MD02G1121400' => 'mdo', 'MD02G1211000' => 'mdo', 'MD06G1059400' => 'mdo', 'MD07G1019900' => 'mdo', 'MD07G1114300' => 'mdo', 'MD08G1149300' => 'mdo', 'MD08G1231800' => 'mdo', 'MD09G1198000' => 'mdo', 'MD15G1235200' => 'mdo', 'MD15G1425200' => 'mdo', 'MD17G1178900' => 'mdo', 'Medtr4g100870' => 'mtr', 'Medtr4g100900' => 'mtr', 'Medtr5g012610' => 'mtr', 'Medtr5g012620' => 'mtr', 'Medtr7g005960' => 'mtr', 'MELO3C004612.2' => 'cme', 'MELO3C013938.2' => 'cme', 'MELO3C015431.2' => 'cme', 'MELO3C016658.2' => 'cme', 'Migut.H02396' => 'egut', 'Migut.J00434' => 'egut', 'Migut.K00571' => 'egut', 'Migut.O00019' => 'egut', 'Migut.O00411' => 'egut', 'MSTRG.12102' => 'ama', 'Nitab4.5_0000012g0360' => 'nta', 'Nitab4.5_0000087g0210' => 'nta', 'Nitab4.5_0000312g0030' => 'nta', 'Nitab4.5_0000540g0120' => 'nta', 'Nitab4.5_0000712g0150' => 'nta', 'Nitab4.5_0000712g0210' => 'nta', 'Nitab4.5_0000712g0230' => 'nta', 'Nitab4.5_0001946g0040' => 'nta', 'Nitab4.5_0002225g0050' => 'nta', 'Nitab4.5_0002526g0020' => 'nta', 'Nitab4.5_0004908g0030' => 'nta', 'Nitab4.5_0007834g0010' => 'nta', 'Nitab4.5_0013328g0010' => 'nta', 'Nitab4.5_0014313g0020' => 'nta', 'Nn1g00994' => 'nnu', 'Nn6g33955' => 'nnu', 'Nn6g35385' => 'nnu', 'Nn8g38965' => 'nnu', 'Oeu002334.2' => 'oeu', 'Oeu020429.3' => 'oeu', 'Oeu021467.1' => 'oeu', 'Oeu040202.2' => 'oeu', 'Oeu057340.1' => 'oeu', 'Os02g0105100' => 'osa', 'Os02g0804100' => 'osa', 'Os06g0105600' => 'osa', 'Os06g0172600' => 'osa', 'Peaxi162Scf00071g00943' => 'pax', 'Peaxi162Scf00102g01063' => 'pax', 'Peaxi162Scf00174g00148' => 'pax', 'PGR004G0541' => 'pgr', 'PGR031G2640' => 'pgr', 'PGR102G2363' => 'pgr', 'PGR102G2650' => 'pgr', 'PGR119G1664' => 'pgr', 'PGSC0003DMG400000286' => 'stu', 'PGSC0003DMG400012505' => 'stu', 'PGSC0003DMG400014042' => 'stu', 'PGSC0003DMG401002397' => 'stu', 'PGSC0003DMG401012474' => 'stu', 'PGSC0003DMG401014041' => 'stu', 'PGSC0003DMG401014044' => 'stu', 'PGSC0003DMG402014041' => 'stu', 'Phvul.002G063200' => 'pvu', 'Phvul.002G063300' => 'pvu', 'Phvul.003G103801' => 'pvu', 'Phvul.003G220800' => 'pvu', 'Phvul.003G220900' => 'pvu', 'Potri.001G157800' => 'ptr', 'Potri.003G077100' => 'ptr', 'Potri.012G086600' => 'ptr', 'Potri.014G147200' => 'ptr', 'Potri.015G084700' => 'ptr', 'Pp3c12_25240' => 'ppa', 'Pp3c12_25260' => 'ppa', 'Pp3c1_420' => 'ppa', 'Pp3c2_28870' => 'ppa', 'Pp3c2_29010' => 'ppa', 'Pp3c4_2840' => 'ppa', 'Pp3c4_2860' => 'ppa', 'Pp3c7_26650' => 'ppa', 'PRCOL_00007104' => 'pco', 'Prupe.2G136900' => 'ppe', 'Prupe.3G053900' => 'ppe', 'Prupe.5G070400' => 'ppe', 'Prupe.7G177900' => 'ppe', 'Psat2g178000' => 'psa', 'Psat2g178120' => 'psa', 'Psat4g072320' => 'psa', 'Psat4g072360' => 'psa', 'PSO063G1509' => 'pso', 'PSO063G7576' => 'pso', 'PSO151G0115' => 'pso', 'PSO339G5398' => 'pso', 'PSO782G3389' => 'pso', 'PSO832G3858' => 'pso', 'QL04p036070' => 'qlo', 'QL04p036474' => 'qlo', 'QL12p012089' => 'qlo', 'QL12p012130' => 'qlo', 'RcHm_v2.0_Chr1g0349011' => 'rch', 'RcHm_v2.0_Chr2g0097921' => 'rch', 'RcHm_v2.0_Chr2g0142001' => 'rch', 'RcHm_v2.0_Chr7g0203381' => 'rch', 'RcHm_v2.0_Chr7g0203391' => 'rch', 'RcHm_v2.0_Chr7g0203401' => 'rch', 'RcHm_v2.0_Chr7g0203431' => 'rch', 'Rhsim01G0065400' => 'rsi', 'Rhsim02G0030500' => 'rsi', 'Rhsim03G0235100' => 'rsi', 'Rhsim05G0030100' => 'rsi', 'Rhsim07G0031700' => 'rsi', 'Rhsim07G0108500' => 'rsi', 'Rhsim07G0252000' => 'rsi', 'Rhsim10G0118500' => 'rsi', 'Sabra01G0133700' => 'sbr', 'Sabra03G0047500' => 'sbr', 'Sabra12G0062000' => 'sbr', 'Sabra14G0110500' => 'sbr', 'SalBow6G4166' => 'sbo', 'Sc02g0002830' => 'sci', 'Sc08g0008240' => 'sci', 'Sc18g0001800' => 'sci', 'Sc22g0000910' => 'sci', 'Sed0006961' => 'sed', 'Sed0009241' => 'sed', 'Sed0012564' => 'sed', 'Sed0018646' => 'sed', 'Sed0022661' => 'sed', 'Sed0027596' => 'sed', 'SEGI_10344' => 'sgi', 'SEGI_17753' => 'sgi', 'SEGI_26714' => 'sgi', 'SEGI_34873' => 'sgi', 'SGA_v2.0_scaffold10G05200' => 'sas', 'SGA_v2.0_scaffold120G32890' => 'sas', 'SGA_v2.0_scaffold135G34974' => 'sas', 'SGA_v2.0_scaffold146G36147' => 'sas', 'SGA_v2.0_scaffold146G36170' => 'sas', 'SMO083G0004' => 'smo', 'SMO083G0007' => 'smo', 'SMO111G0013' => 'smo', 'SMO111G0028' => 'smo', 'SMO111G0071' => 'smo', 'SMO111G0167' => 'smo', 'SMO111G0194' => 'smo', 'SMO111G0203' => 'smo', 'SMO111G0215' => 'smo', 'SMO111G0217' => 'smo', 'SMO121G0002' => 'smo', 'SMO121G0005' => 'smo', 'SMO121G0006' => 'smo', 'SMO121G0008' => 'smo', 'SMO140G0014' => 'smo', 'SMO140G0018' => 'smo', 'SMO140G0025' => 'smo', 'SMO140G0026' => 'smo', 'SMO140G0034' => 'smo', 'SMO140G0046' => 'smo', 'SMO140G0048' => 'smo', 'SMO140G0055' => 'smo', 'SMO140G0059' => 'smo', 'SMO140G0072' => 'smo', 'SMO140G0073' => 'smo', 'SMO140G0076' => 'smo', 'SMO140G0080' => 'smo', 'SMO140G0089' => 'smo', 'SMO140G0093' => 'smo', 'SMO140G0116' => 'smo', 'SMO154G0001' => 'smo', 'SMO232G0064' => 'smo', 'SMO241G0008' => 'smo', 'SMO338G0008' => 'smo', 'SMO338G0009' => 'smo', 'SMO338G0029' => 'smo', 'SMO340G0018' => 'smo', 'SMO367G0378' => 'smo', 'Solyc08g007340.3' => 'sly', 'Solyc08g007360.3' => 'sly', 'Solyc08g076340.3' => 'sly', 'Solyc12g008700.3' => 'sly', 'Sopen08g003280' => 'spe', 'Sopen08g003300' => 'spe', 'Sp2g12200' => 'spa', 'Sp2g12210' => 'spa', 'Sp2g12220' => 'spa', 'Sp3g33080' => 'spa', 'Sp6g18440' => 'spa', 'Sp7g27260' => 'spa', 'SpUn0698_0010' => 'spa', 'TAR374G0077' => 'tar', 'TAR374G0142' => 'tar', 'TAR375G0313' => 'tar', 'TAR624G1173' => 'tar', 'TAR629G2857' => 'tar', 'TAR636G2690' => 'tar', 'TAR636G3400' => 'tar', 'THA.LOC104803993' => 'tha', 'THA.LOC104806723' => 'tha', 'THA.LOC104811731' => 'tha', 'THA.LOC104812805' => 'tha', 'THA.LOC104813329' => 'tha', 'THA.LOC104813483' => 'tha', 'THA.LOC104815509' => 'tha', 'THA.LOC104817744' => 'tha', 'Thecc.01G384500' => 'tca', 'Thecc.03G250700' => 'tca', 'Thecc.06G105200' => 'tca', 'Thecc.09G095100' => 'tca', 'Thhalv10000734m.g' => 'esa', 'Thhalv10000744m.g' => 'esa', 'Thhalv10002144m.g' => 'esa', 'Thhalv10015110m.g' => 'esa', 'Thhalv10026738m.g' => 'esa', 'TPR.G25927' => 'tpr', 'TWI32G1051' => 'twi', 'TWI34G0636' => 'twi', 'TWI59G0973' => 'twi', 'TWI60G0116' => 'twi', 'TWI63G1204' => 'twi', 'TWI75G0230' => 'twi', 'TWI81G0647' => 'twi', 'unitig_0.g1057' => 'ugi', 'vmacro10824' => 'vma', 'vmacro10825' => 'vma', 'vmacro13447' => 'vma', 'vmacro14082' => 'vma', 'VMungo0251G0583' => 'vmu', 'VMungo1215G3447' => 'vmu', 'Zm00001eb209850' => 'zma', 'Zm00001eb229410' => 'zma', 'Zm00001eb268610' => 'zma', 'Zm00001eb281710' => 'zma' ) $gf_id = 'HOM05D001088' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001088' ) $data_identifier = 'HOM05D001088' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 15, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 6, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 3, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 2, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 12, 'dca' => (int) 5, 'din' => (int) 3, 'dzi' => (int) 10, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 1, 'fan' => (int) 19, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 12, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 8, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 3, 'lja' => (int) 5, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 3, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 1, 'nta' => (int) 14, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 8, 'sbr' => (int) 4, 'sbo' => (int) 1, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 4, 'sas' => (int) 5, 'smo' => (int) 38, 'sly' => (int) 4, 'spe' => (int) 2, 'spa' => (int) 7, 'tar' => (int) 7, 'tha' => (int) 8, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 1, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 2, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb281710' $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